BAC Information

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BAC

Clone NameMSMg01-340H21
Chromosome18 (Build37)
Map Location 89,173,495 - 89,364,470
singlet/doubletdoublet
Overlap geneRttn
Upstream geneLOC100039961, LOC100039972, LOC623177, LOC665497, LOC100040003, LOC623208, Socs6
Downstream geneCd226, Dok6, LOC383320, LOC620693
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-340H21.T7 (MSMg01no340_h21.b1)MSMg01-340H21.TJ (MSMg01no340_h21.g1)
ACCAG454517AG454518
length724742
length of high quality
(start - end)		529 (50 - 578)473 (81 - 553)
definitionCHROMAT_FILE: MSMg01no340_h21.b1 PHD_FILE: MSMg01no340_h21.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:29:31 2005CHROMAT_FILE: MSMg01no340_h21.g1 PHD_FILE: MSMg01no340_h21.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:29:31 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(89,363,946 - 89,364,470)(89,173,495 - 89,173,967)
sequence
NNNAATCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXC
GCGGAATTCACTTTTGCCAATTTCATGTCTCACAAGTATTCTATTCTAAG
CTTCCATTCAGATATAAATAATATTTCATATTTTAAAGACACATGATCTG
TTAAAGTAGAGCCTATGCATACAAGAATCATTTTTCTTGATTTCTCTTAC
TGTTCTTCCATCCATCAGGTCTCAGCTCAGACATCCTTCATAAAAGTTTC
TCTTGACTGGAGAGAGATCTCAAAAATCAGGTTTCGGTATCCCTCCTGTG
ATCTTCTTGCAACCTTGGCATGCATTTACTGAAGCATATAATATACCTTT
TGTGATTGCTTTTCTTATTCTAGTCTAATAAATCCGTTCAAGGTGGGTGT
AATGGTACAAGCCTGTGATCTGAGCACCTGGGAGTTAGGAGGAGGAGGAT
CACTTGTTCAAGTCACATGCAGCTACATAGTGAGTTCAAGACCAGCCACA
AAGTATCACAAAGTATTAATGAACAAATGAATAAGACATATTGTCTTGTC
CATTGCTCTTTTCTCATTGTCTGGCACCTGGGTTGGGGTGTAACCAACAC
TTGTTAAATTGGGATGAAACAATAACTTCAGCTCCTTGGGTTTTATAGCA
TATATCCACAAACTACTCATAATCTGTATTCCATCTTGGGTTCTAGTAAT
AGATGATCTTCTCCTGCACTTTAC

NNNNCCGATGATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXAAACCCAGTTATTTTTCTCA
CTAGAGTTAGGCATTGACCTTTCAAACCAATGAAGGGGCCTTTTCATCCC
ATTTTGTTTCTACTCAGAAACTAGACCATAAACCATTTGCTCCAGCAGCA
GATCCCAAAGTCCTGGAACAAGACAATAAAATTCCCCACTTGTGGAACAG
CCTAATGATAGCCACATGAATGGGAGATAATCTTATCTTAGAACGGGCTA
ATCTCTGCAGGAACTGCTCACTTCTTGGTTGAAGTCCTGGGAAGAGAAAG
GGAGGGAGGCCTGTCTCTGCTCTTTGTTCTCAGCACTTATACATCTTTCA
GAGGGCATGACCACATGGTAAAAATTATACCACAAGTTTGCACATAAATT
CAGGTCATAAATTGGAAAAAAGGTTTACAACAGAGGATGTCTACATGCGT
ATCTACTAAGAGTAATTATCTGGCTAAACATTCATCATTTGTTACTAGCA
GTACAGGTTCATGGTGAGTTAAAGACCACAACTAAGTTATCCTTGGAAAT
TTGTATAGATAAACCTAGTCAATATTTTATCTTCTGTCCCTGGCACTATA
GNAATCCTTAATTCCCGTTTTATGACCTTTGGCTAAAGGGGTTTAAAACC
TTTTGGAAGGGGTCCAGGGTAAAAATGGCCGCTTGCTATCTC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no340_h21.b1 MSMg01no340_h21.b1 CHROMAT_FILE:
MSMg01no340_h21.b1 PHD_FILE: MSMg01no340_h21.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:29:31 2005
         (529 letters)



>mm_chr18_89363926_89364854
          Length = 929

 Score = 1007 bits (521), Expect = 0.0
 Identities = 524/525 (99%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattcacttttgccaatttcatgtctcacaagtattctattctaagcttccattcagat 64
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 545 gaattcacttttgccaatttcatgtctcacaagtattctattctaagcttccattcagat 486

                                                                       
Query: 65  ataaataatatttcatattttaaagacacatgatctgttaaagtagagcctatgcataca 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 485 ataaataatatttcatattttaaagacacatgatctgttaaagtagagcctatgcataca 426

                                                                       
Query: 125 agaatcatttttcttgatttctcttactgttcttccatccatcaggtctcagctcagaca 184
           ||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 425 agagtcatttttcttgatttctcttactgttcttccatccatcaggtctcagctcagaca 366

                                                                       
Query: 185 tccttcataaaagtttctcttgactggagagagatctcaaaaatcaggtttcggtatccc 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 365 tccttcataaaagtttctcttgactggagagagatctcaaaaatcaggtttcggtatccc 306

                                                                       
Query: 245 tcctgtgatcttcttgcaaccttggcatgcatttactgaagcatataatataccttttgt 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 305 tcctgtgatcttcttgcaaccttggcatgcatttactgaagcatataatataccttttgt 246

                                                                       
Query: 305 gattgcttttcttattctagtctaataaatccgttcaaggtgggtgtaatggtacaagcc 364
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 245 gattgcttttcttattctagtctaataaatccgttcaaggtgggtgtaatggtacaagcc 186

                                                                       
Query: 365 tgtgatctgagcacctgggagttaggaggaggaggatcacttgttcaagtcacatgcagc 424
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 185 tgtgatctgagcacctgggagttaggaggaggaggatcacttgttcaagtcacatgcagc 126

                                                                       
Query: 425 tacatagtgagttcaagaccagccacaaagtatcacaaagtattaatgaacaaatgaata 484
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 125 tacatagtgagttcaagaccagccacaaagtatcacaaagtattaatgaacaaatgaata 66

                                                        
Query: 485 agacatattgtcttgtccattgctcttttctcattgtctggcacc 529
           |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 65  agacatattgtcttgtccattgctcttttctcattgtctggcacc 21


Lambda     K      H
    1.37    0.711     1.31 

Gapped
Lambda     K      H
    1.34    0.600     1.10 


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 2, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 26
Number of extensions: 1
Number of successful extensions: 1
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 529
Length of database: 929
Length adjustment: 10
Effective length of query: 519
Effective length of database: 919
Effective search space:   476961
Effective search space used:   476961
X1: 8 (15.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 8 (16.4 bits)
S2: 8 (16.2 bits)

Query= MSMg01no340_h21.g1 MSMg01no340_h21.g1 CHROMAT_FILE:
MSMg01no340_h21.g1 PHD_FILE: MSMg01no340_h21.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:29:31 2005
         (473 letters)



>mm_chr18_89173295_89174167
          Length = 873

 Score =  899 bits (465), Expect = 0.0
 Identities = 471/473 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   aaacccagttatttttctcactagagttaggcattgacctttcaaaccaatgaaggggcc 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 aaacccagttatttttctcactagagttaggcattgacctttcaaaccaatgaaggggcc 260

                                                                       
Query: 61  ttttcatcccattttgtttctactcagaaactagaccataaaccatttgctccagcagca 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 ttttcatcccattttgtttctactcagaaactagaccataaaccatttgctccagcagca 320

                                                                       
Query: 121 gatcccaaagtcctggaacaagacaataaaattccccacttgtggaacagcctaatgata 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 gatcccaaagtcctggaacaagacaataaaattccccacttgtggaacagcctaatgata 380

                                                                       
Query: 181 gccacatgaatgggagataatcttatcttagaacgggctaatctctgcaggaactgctca 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 gccacatgaatgggagataatcttatcttagaacgggctaatctctgcaggaactgctca 440

                                                                       
Query: 241 cttcttggttgaagtcctgggaagagaaagggagggaggcctgtctctgctctttgttct 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 cttcttggttgaagtcctgggaagagaaagggagggaggcctgtctctgctctttgttct 500

                                                                       
Query: 301 cagcacttatacatctttcagagggcatgaccacatggtaaaaattataccacaagtttg 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 cagcacttatacatctttcagagggcatgaccacatggtaaaaattataccacaagtttg 560

                                                                       
Query: 361 cacataaattcaggtcataaattggaaaaaaggtttacaacagaggatgtctacatgcgt 420
           |||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||
Sbjct: 561 cacataaattcaggtcataaattggataaaaggtttacaacagaggatgtctacatgcgt 620

                                                                
Query: 421 atctactaagagtaattatctggctaaacattcatcatttgttactagcagta 473
           |||||||||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct: 621 atctactaagagtaattatctggctaaacattcatcatttgttactggcagta 673


Lambda     K      H
    1.37    0.711     1.31 

Gapped
Lambda     K      H
    1.34    0.600     1.10 


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 2, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 24
Number of extensions: 1
Number of successful extensions: 1
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 473
Length of database: 873
Length adjustment: 10
Effective length of query: 463
Effective length of database: 863
Effective search space:   399569
Effective search space used:   399569
X1: 8 (15.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 8 (16.4 bits)
S2: 8 (16.2 bits)


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